Gene loci information

Transcript annotation

  • This transcript has been annotated as Adenylosuccinate synthetase.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_3 g1978 g1978.t24 TSS g1978.t24 14170301 14170301
chr_3 g1978 g1978.t24 isoform g1978.t24 14170363 14174042
chr_3 g1978 g1978.t24 exon g1978.t24.exon1 14170363 14170572
chr_3 g1978 g1978.t24 cds g1978.t24.CDS1 14170363 14170572
chr_3 g1978 g1978.t24 exon g1978.t24.exon2 14171681 14171783
chr_3 g1978 g1978.t24 cds g1978.t24.CDS2 14171681 14171783
chr_3 g1978 g1978.t24 exon g1978.t24.exon3 14172083 14172368
chr_3 g1978 g1978.t24 cds g1978.t24.CDS3 14172083 14172368
chr_3 g1978 g1978.t24 exon g1978.t24.exon4 14172459 14172610
chr_3 g1978 g1978.t24 cds g1978.t24.CDS4 14172459 14172610
chr_3 g1978 g1978.t24 exon g1978.t24.exon5 14172678 14172731
chr_3 g1978 g1978.t24 cds g1978.t24.CDS5 14172678 14172731
chr_3 g1978 g1978.t24 exon g1978.t24.exon6 14172807 14172973
chr_3 g1978 g1978.t24 cds g1978.t24.CDS6 14172807 14172973
chr_3 g1978 g1978.t24 exon g1978.t24.exon7 14173051 14173235
chr_3 g1978 g1978.t24 cds g1978.t24.CDS7 14173051 14173235
chr_3 g1978 g1978.t24 exon g1978.t24.exon8 14173296 14174042
chr_3 g1978 g1978.t24 cds g1978.t24.CDS8 14173296 14173536
chr_3 g1978 g1978.t24 TTS g1978.t24 14174000 14174000

Sequences

>g1978.t24 Gene=g1978 Length=1904
ATGGCATCATCAACGCTAAATGGAGAAATCAATAATATAAACTACACAGATGATGTTATT
TCCCGTAATCGTTCTGGATCTTTAACTGGATCAGTTAGTAGTTATTCAAACAAGGTTTTA
GTAGTACTCGGTGCACAATGGGGAGATGAAGGGAAGGGAAAAGTCGTGGATATGCTTTCA
GTCAACGCTGACGTTGTTTGTAGATGTCAAGGCGGTAATAATGCAGGACATACAGTTGTC
GTTGATGGAAAGGAATTTGATTTTCATCTTTTGCCGAGTGGAATAATCAATGAAAAAAGC
ATATCTATAATTGGCAATGGAGTTGTTGTACATCTTCCTGGCTTATTTGAGGAATTGGCA
AAGAATGAGGCAAAAGGCTTATCAGATTGGCAAAATCGTTTGATTGTCTCTGACAGAGCT
CATTTGGTTTTTGATTTTCATCAACAAGTTGATGGATTGCAAGAGGCAGAAAAATGTAGA
GAAGGAAAATCACTTGGCACAACGAAAAAGGGCATTGGTCCAGCCTATTCTTCGAAAGCC
ACACGTAATGGCATTCGAGTTGGAGACTTGCTTGGTGATTTCAACACATTTAGTGACAAA
TCTATGCATAGATTTCGTTCAATTGTTGCTACTCATCAACGTTTGTTTCCTGGCTGTGTC
GTTGATGTTGAAGCAGAACTCACTCGATATCAACAGTATGCTGAAAAATTACGACCTTAT
GTGAAAGACACCATCTTTTATCTTCATTCTGCATTGCGAAATGGCAAGACTGTTTTGGTC
GAAGGAGCAAATGCGGCAATGTTGGATATCGATTTTGGAACATATCCTTATGTGACGAGT
AGTAATTGCTCAATCGGTGGCGTTTTAACAGGTCTCGGTTTGCCGCCAAAAGTTATTGGA
GAAGTCATTGGTGTTGTTAAGTCATATACGACAAGAGTCGGTGATGGACCATTCCCCACA
GAATTAAAAGATGACATTGGTGAACTTTTACAAACGCGTGGTGGAGAAATTGGTGTCACA
ACAAAACGAAAACGTCGTTGTGGTTGGTTGGATTTACCTGTGTTACGATATACCTCACTT
GTCAATGGTTATTCAGCAATTTGCTTAACGAAACTTGATATCCTTGATACTTTGCCTACA
ATTAAAATTGGCATCAATTATAAATTACATAACAAAACGATCTACAATTTTCCTGGATCT
ATTTCTGATTTGGCTCAAGTTGAGGTCGAATATGTTACACTCCCTGGTTGGCAACAATCG
ACTGCAAATATTCGCGACTTTCGTGACCTACCCGAAAATGCACAAAACTATGTGCGATTT
ATTGAGAAGGATTTGGATGTTCCAATTAAGTGGATTGGAGTTGGAAAAGGGCGAGAATCA
ATTATTAAAGTATATTAAAAACATGTGCAGTATTGCACTTAAAATTACTTATTTTTTTAA
CTTGATAAATTCTTCAGAAACCAAATGAGATATAGCCCTTTCCTATTTTGTTAAAACACT
CTCTTTTATAAAAGAGCCTTAAATATTTTTTTTATAAAATTAAATTGTAAATGATCATTT
TGATTGTGAACAAGAATTAACATTTTGAGGGAGCTTAATGGCTTTTAAATACTTAAATTT
TTATCTTAATAGTAATAATTTAGCCAAGAACAGTAATCGCACATGCACACAACAAACACT
ATACTTAAATTGCTATTACTTATAATTAGCATATGATACACTTTAAATAATCAATTCCAA
TGTGAAAAAAAATTTGAATGTTAAGAAAATATCTTTGTTTGATGCAATGAACAGAAACTT
ATAGAGACGAGATATGCTAAACTTGCTATATTTTAAATAAATTTTTAATTGTCCTTTAAA
ACAAAAAAAACTTTTATTTTAATTTAGAAAATATAATTAACAGT

>g1978.t24 Gene=g1978 Length=465
MASSTLNGEINNINYTDDVISRNRSGSLTGSVSSYSNKVLVVLGAQWGDEGKGKVVDMLS
VNADVVCRCQGGNNAGHTVVVDGKEFDFHLLPSGIINEKSISIIGNGVVVHLPGLFEELA
KNEAKGLSDWQNRLIVSDRAHLVFDFHQQVDGLQEAEKCREGKSLGTTKKGIGPAYSSKA
TRNGIRVGDLLGDFNTFSDKSMHRFRSIVATHQRLFPGCVVDVEAELTRYQQYAEKLRPY
VKDTIFYLHSALRNGKTVLVEGANAAMLDIDFGTYPYVTSSNCSIGGVLTGLGLPPKVIG
EVIGVVKSYTTRVGDGPFPTELKDDIGELLQTRGGEIGVTTKRKRRCGWLDLPVLRYTSL
VNGYSAICLTKLDILDTLPTIKIGINYKLHNKTIYNFPGSISDLAQVEVEYVTLPGWQQS
TANIRDFRDLPENAQNYVRFIEKDLDVPIKWIGVGKGRESIIKVY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g1978.t24 CDD cd03108 AdSS 38 462 0.0
7 g1978.t24 Gene3D G3DSA:3.40.440.10 Adenylosuccinate Synthetase 41 299 4.7E-109
8 g1978.t24 Gene3D G3DSA:1.10.300.10 Adenylosuccinate Synthetase 138 240 4.7E-109
6 g1978.t24 Gene3D G3DSA:3.90.170.10 Adenylosuccinate Synthetase 306 465 2.5E-66
4 g1978.t24 Hamap MF_00011 Adenylosuccinate synthetase [purA]. 1 465 175.590164
2 g1978.t24 PANTHER PTHR11846 ADENYLOSUCCINATE SYNTHETASE 28 463 2.8E-197
3 g1978.t24 PANTHER PTHR11846:SF2 ADENYLOSUCCINATE SYNTHETASE ISOZYME 1 28 463 2.8E-197
1 g1978.t24 Pfam PF00709 Adenylosuccinate synthetase 41 462 1.3E-175
10 g1978.t24 ProSitePatterns PS01266 Adenylosuccinate synthetase GTP-binding site. 46 53 -
11 g1978.t24 ProSitePatterns PS00513 Adenylosuccinate synthetase active site. 171 182 -
12 g1978.t24 SMART SM00788 adenylsucc_synt 39 463 5.5E-254
5 g1978.t24 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 37 463 3.51E-159
13 g1978.t24 TIGRFAM TIGR00184 purA: adenylosuccinate synthase 41 463 1.1E-157

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0006164 purine nucleotide biosynthetic process BP
GO:0005525 GTP binding MF
GO:0004019 adenylosuccinate synthase activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values